List of phylogenetic tree visualization software

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This list of phylogenetic tree viewing software is a compilation of software tools and web portals used in visualising phylogenetic trees.

Online software

Name Description Site Citation
Archaeopteryx Java tree viewer and editor (used to be ATV) [1] [1]
EvolView, an online tool for visualizing, annotating and managing phylogenetic trees. [2] [2]
ETE toolkit A Python Environment for Tree Exploration (online treeview) [3] [3]
Hypergeny visualise large phylogenies with this hyperbolic tree browser [4]
InfoViz Tree Tools the generic Javascript InfoViz toolkit supports hyperbolic, space and icicle trees [5]
iTOL - interactive Tree Of Life annotate trees with various types of data and export to various graphical formats; scriptable through a batch interface [6] [4]
TreeVector scalable, interactive, phylogenetic trees for the web, produces dynamic SVG or PNG output, implemented in Java. [7] [5]
jsPhyloSVG open-source javascript library for rendering highly-extensible, customizable phylogenetic trees. [8] [6]
JStree open-source javascript library for viewing and editing phylogenetic trees with HTML5 canvas [9]
OneZoom uses IFIG (Interactive Fractal Inspired Graphs) to display phylogenetic trees which can be zoomed in on to increase detail [10] [7]
Phylodendron different tree styles, branch styles and output graphical formats [11]
PhyloExplorer a tool to facilitate assessment and management of phylogenetic tree collections. Given an input collection of rooted trees, PhyloExplorer provides facilities for obtaining statistics describing the collection, correcting invalid taxon names, extracting taxonomically relevant parts of the collection using a dedicated query language, and identifying related trees in the TreeBASE database. [12] [8]
Phylo.io View and compare up to 2 trees side by side with interactive HTML5 visualisations [13] [9]
Phyloviewer web-based integrated environment for phylogenomic analysis based on the Bioinformatics Portal System [14]
PhyloWidget view, edit, and publish phylogenetic trees online; interfaces with databases [15] [10]
TRED a tool to visualize and edit phylogenetic trees. Combines a browser-based Javascript client with a Python (web2py) server. Trees are rendered in SVG using Raphael. [16]
Treedraw HTML5 canvas based phylogenetic tree viewer [17]
TreeViz Java tree viewer that does treemaps as well [18]
T-REX (Webserver) Tree inference and visualization (hierarchical, radial and axial tree views), Horizontal gene transfer detection and HGT network visualization [19] [11]
TreeLink Phylogenetic visualization, clustering and data integration. [20] [12]
Microreact Link, visualise and explore sequence and meta-data using phylogenetic trees, maps and timelines. [21]
PHYLOViZ Online Web-based tool for visualization, phylogenetic inference, analysis and sharing of minimum spanning trees [22] [13]


Desktop Software

Name Description OS1 Site Citation
ARB An integrated software environment for tree visualisation and annotation. LM [23] [14]
BayesTrees A program designed to display, analyse and manipulate samples of trees, in particular Bayesian samples. W [24]
BioNumerics Universal platform for the management, storage and analysis of all types of biological data, including tree and network inference of sequence data. W [25]
Bio::Phylo A collection of Perl modules for manipulating and visualizing phylogenetic data. Bio::Philo is one part of a comprehensive suite of Perl biology tools. All [26] [15]
Dendroscope An interactive viewer for large phylogenetic trees and networks All [27] [16]
DensiTree A viewer capable of viewing multiple overlaid trees. All [28] [17]
ETE A Python toolkit that assists in the visualization of custom phylogenetic tree images (exports as PNG, PDF and SVG). All [29] [3]
FigTree Modern treeviewer with coloring and collapsing All [30]
Geneious Pro All-in-one sequence analysis, phylogenetics and molecular cloning application with modern treeviewer All [31]
JEvTrace A multivalent browser for sequence alignment, phylogeny, and structure. Performs an interactive Evolutionary Trace and other phylogeny inspired analysis. All [32] [18]
MultiDendrograms Application to calculate and plot phylogenetic trees All [33] [19]
NJplot Interactive tree plotter, re-roots, exports as PDF All [34]
TreeDyn Very powerful open-source software for tree manipulation and annotation allowing incorporation of meta information All [35] [20]
TreeGraph 2 Open-source tree editor with numerous editing and formatting operations including combining different phylogenetic analyses All [36] [21]
TreeView Classic treeviewing software that is very highly cited [37] All [38] [22]
UGENE An opensource visual interface for Phylip 3.6 package All [39]
VectorFriends An integrated sequence analysis software with viewer for phylogenetic trees W [40]
PHYLOViZ Phylogenetic inference and data visualization for allelic/SNP sequences profiles using Minimum Spanning Trees All [41] [23]

1 "All" refers to Microsoft Windows, Apple OSX and Linux; L=Linux, M=Apple Mac, W=Microsoft Windows

See also

References

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External links

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